Sequence
atgc intronic sequence ATGC exonic sequence...taaagaaccatttgaaatagctgctttactttgatttagaagagaacatggtaatggcatataaggctgttgttgtatttctgctgcttcttgcatgcagGCTGCAAGGATATTGATGATGCACTCCACTGTCACGTCCTTCCAAATGGAAACTTTGAAGTTGGAGTTC
Basic information
species | Glycine max |
transcript | GLYMA04G39980.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G39980.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G031859_T03 (Zea mays), 3'ss of exon 10
taaagaaccatttgaaatagctgctttactttgatttagaagagaacatggtaatggcatataaggctgttgttgtatttctgctgcttcttgcatgcagGCTGCAAGGATATTGATGATGCACTCCACTGTCACGTCCTTCCAAATGGAAACTTTGAAGTTGGAGTTC
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--gtaatttaatcaggatacctgcaatcttttggtattttatgtacctgggtcaaacccttagaca-----gttatacttcaactgctt------tatagGTTGTCGAGACATTGATGATGCACTACATTGCACACTACTTCCAAATGGGAACTTTGAAGTTGGAGTTC
upper sequence: GLYMA04G39980.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G17510.2 (Arabidopsis thaliana), 3'ss of exon 11
---------taaagaac--catttgaaatagctgctttactttgatttagaagagaacatggtaatggcatataaggct-gttgt-------tgtatttctgctgcttcttgcatgcagGCTGCAAGGATATTGATGATGCACTCCACTGTCACGTC-CTTCCAAATGGAAACTTTGAAGTTGGAGTTC-------------------------------
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gtatgtatctagagctttacattttataaagtatatatgattcaagccaaatttaaatgtc-tcccagagtctgcagttagttgtgcacaagcagattaactttatttggtgctaacagGTTGCAAGGATATTGATGATGCATTGCACTGT-ACATCGCTTCCAAACGGGAACTTTGAACTTGGAGTCCGTATCCTAGAGTCCTCAGATTCTCATAAATA
upper sequence: GLYMA04G39980.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G17510.1 (Arabidopsis thaliana), 3'ss of exon 10
---------taaagaac--catttgaaatagctgctttactttgatttagaagagaacatggtaatggcatataaggct-gttgt-------tgtatttctgctgcttcttgcatgcagGCTGCAAGGATATTGATGATGCACTCCACTGTCACGTC-CTTCCAAATGGAAACTTTGAAGTTGGAGTTC
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gtatgtatctagagctttacattttataaagtatatatgattcaagccaaatttaaatgtc-tcccagagtctgcagttagttgtgcacaagcagattaactttatttggtgctaacagGTTGCAAGGATATTGATGATGCATTGCACTGT-ACATCGCTTCCAAACGGGAACTTTGAACTTGGAGTCC
upper sequence: GLYMA04G39980.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S81_43V6.1 (Physcomitrella patens), 3'ss of exon 10
taaagaaccatttgaaatagctgctttactttgatttagaagagaacatggtaatggcatataaggctgt-tgttgtatt-tctgctgcttcttgcatgcagGCTGCAAGGATATTGATGATGCACTCCACTGTCACGTCCTTCCAAATGGAAACTTTGAAGTTGGAGTTC
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-------------gtaagaa-tgttttccttgtgattagttgttcaattatttacaaagcagcacaatgtatcttatattatttaccgttt------tgcagGCTGCAGGGATATTGATGATGCGCTTCACTGTACACTACTGCCTGATGGTCATTACGAAGTTGGAGTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatggtaatggcatataaggctgttgttgtatttctgctgcttcttgcatgcagGCTGCAAGGATATTGATGATGCACTCCACTGTCACGTCCTTCCAAATGGAAACTTTGAAGTTGGAGTTC
tttctgctgcttctt CT-rich tract
ttgtattt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaagaaccatttgaaatagctgctttactttgatttagaagagaacatggtaatggcatataaggctgttgttgtatttctgctgcttcttgcatgcagGCTGCAAGGATATTGATGATGCACTCCACTGTCACGTCCTTCCAAATGGAAACTTTGAAGTTGGAGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - -ccatttg
- - - - - - - - -tagctgc
- - - - - - - - - - - - - - - - - - - gaagagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgta